Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 75 of 343
Found at i:24498971 original size:41 final size:41
Alignment explanation
Indices: 24498894--24498971 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
24498884 TTTGTATCTC
* * *
24498894 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
24498935 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
24498972 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:24520912 original size:20 final size:22
Alignment explanation
Indices: 24520887--24520942 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
24520877 TGAGGGGTTA
*
24520887 ACACGCCTATGTG-GAGG-GGC
1 ACACGCCTATGTGAAAGGAGGC
*
24520907 ACACGCCCATGTGAAAGGAGGC
1 ACACGCCTATGTGAAAGGAGGC
*
24520929 ACACGCCTGTGTGA
1 ACACGCCTATGTGA
24520943 CCTAGGGACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 12 0.40
21 3 0.10
22 15 0.50
ACGTcount: A:0.25, C:0.27, G:0.34, T:0.14
Consensus pattern (22 bp):
ACACGCCTATGTGAAAGGAGGC
Found at i:24520932 original size:22 final size:20
Alignment explanation
Indices: 24520887--24520935 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
24520877 TGAGGGGTTA
* *
24520887 ACACGCCTATGTGGAGGGGC
1 ACACGCCCATGTGAAGGGGC
24520907 ACACGCCCATGTGAAAGGAGGC
1 ACACGCCCATGTG-AAGG-GGC
24520929 ACACGCC
1 ACACGCC
24520936 TGTGTGACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 12 0.48
21 3 0.12
22 10 0.40
ACGTcount: A:0.27, C:0.31, G:0.33, T:0.10
Consensus pattern (20 bp):
ACACGCCCATGTGAAGGGGC
Found at i:24521804 original size:6 final size:6
Alignment explanation
Indices: 24521788--24521843 Score: 60
Period size: 6 Copynumber: 9.3 Consensus size: 6
24521778 TTAATACAAC
* * * *
24521788 AAAAT- AAAATA AAAATA AGTAAGA CAAATA AAAATA AAAATA AAAGTA
1 AAAATA AAAATA AAAATA A-AAATA AAAATA AAAATA AAAATA AAAATA
24521836 AAAATA AA
1 AAAATA AA
24521844 TATCTAACCT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
5 5 0.12
6 33 0.80
7 3 0.07
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:24524740 original size:21 final size:22
Alignment explanation
Indices: 24524715--24524755 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
24524705 ACGTCCATGT
*
24524715 GAAGG-GGCACCCGCCCGTGCA
1 GAAGGAGGCACACGCCCGTGCA
*
24524736 GAAGGAGGCACATGCCCGTG
1 GAAGGAGGCACACGCCCGTG
24524756 TGACCTAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.22, C:0.32, G:0.39, T:0.07
Consensus pattern (22 bp):
GAAGGAGGCACACGCCCGTGCA
Found at i:24528876 original size:25 final size:25
Alignment explanation
Indices: 24528796--24528876 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
24528786 AGCATGTAAA
* *
24528796 CGGGAAGCTCTTCCGAGCCATATAAT
1 CGGGAAGCTCTTGCGAGCCAAAT-AT
* * *
24528822 -GGGAAGCT-TATGTGAGCCGAATAA
1 CGGGAAGCTCT-TGCGAGCCAAATAT
*
24528846 CAGGAAGCTCTTGCGAGCCAAATAT
1 CGGGAAGCTCTTGCGAGCCAAATAT
24528871 CGGGAA
1 CGGGAA
24528877 ACTCATACGA
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
24 2 0.05
25 39 0.93
26 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (25 bp):
CGGGAAGCTCTTGCGAGCCAAATAT
Found at i:24540519 original size:40 final size:40
Alignment explanation
Indices: 24540433--24540518 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 40
24540423 CCATTCCAAT
*
24540433 AAAAAAATATTTATAGTCAAAAGTAAACCATTAAATAAAC
1 AAAAAAATATTTATAGTCAAAAGTAAAACATTAAATAAAC
* *
24540473 CAAAAAATATTTATAGT-AAAAGTAAAACATTGAATAAAC
1 AAAAAAATATTTATAGTCAAAAGTAAAACATTAAATAAAC
24540512 AAAAAAA
1 AAAAAAA
24540519 AAAAAAAGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 26 0.62
40 16 0.38
ACGTcount: A:0.63, C:0.08, G:0.06, T:0.23
Consensus pattern (40 bp):
AAAAAAATATTTATAGTCAAAAGTAAAACATTAAATAAAC
Found at i:24543942 original size:37 final size:37
Alignment explanation
Indices: 24543870--24543942 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
24543860 AGTCTTAAGG
*
24543870 TTTGGGTAGAAAACTTAAGGAAGTTATAATCTTAAAA
1 TTTGGGTAGAAAACTTAAGGAAGTTATAAGCTTAAAA
* * * * *
24543907 TTTGGGTAGAAAATTTGAGGGAGTTGTAAGGTTAAA
1 TTTGGGTAGAAAACTTAAGGAAGTTATAAGCTTAAA
24543943 CATTATCCTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (37 bp):
TTTGGGTAGAAAACTTAAGGAAGTTATAAGCTTAAAA
Found at i:24546006 original size:159 final size:159
Alignment explanation
Indices: 24545806--24546108 Score: 498
Period size: 159 Copynumber: 1.9 Consensus size: 159
24545796 GATCAAGTCA
* * * *
24545806 GTAAATATTATCTGTTAATATTTACAAGCCTATTAAAGTGTTATAGTGCTTTTTGGTCCGGAAAT
1 GTAAATATTATCTATTAATATTTACAAACCTATTAAAGTGTTATAGTGATCTTTGGTCCGGAAAT
* * *
24545871 TTTGTTGATCGGTTAGTAATTAAAATATAAGGACTAAATCGTAAAAATAGTAAAAGTTGATTTCA
66 TTTGTTGATCAGTTAGTAATTAAAACATAAGGACTAAATCGTAAAAATAGTAAAAGCTGATTTCA
24545936 ATTGGCTTTATCTAATAAATGATCAGTTG
131 ATTGGCTTTATCTAATAAATGATCAGTTG
* * *
24545965 GTAAATATTATCTATTAATATTTACAAACTTATTAAGGTGTTATAGTGATCTTTGGTCCGGTAAT
1 GTAAATATTATCTATTAATATTTACAAACCTATTAAAGTGTTATAGTGATCTTTGGTCCGGAAAT
*
24546030 TTTGTTGATCAGTTAGTAATTAAAGCATAAGGACTAAATCGTAAAAATAGTAAAAGCTGATTTCA
66 TTTGTTGATCAGTTAGTAATTAAAACATAAGGACTAAATCGTAAAAATAGTAAAAGCTGATTTCA
*
24546095 ATTGGTTTTATCTA
131 ATTGGCTTTATCTA
24546109 GTAATTGAGT
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
159 132 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (159 bp):
GTAAATATTATCTATTAATATTTACAAACCTATTAAAGTGTTATAGTGATCTTTGGTCCGGAAAT
TTTGTTGATCAGTTAGTAATTAAAACATAAGGACTAAATCGTAAAAATAGTAAAAGCTGATTTCA
ATTGGCTTTATCTAATAAATGATCAGTTG
Found at i:24547185 original size:22 final size:22
Alignment explanation
Indices: 24547160--24547234 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
24547150 TTTCACTTCG
*
24547160 GTGCCTACTGATTCGTACTACA
1 GTGCCTACTGATTCGCACTACA
*
24547182 GTGCCTACT-ATTCGGCACTTCA
1 GTGCCTACTGATTC-GCACTACA
* * *
24547204 GTACTTATTGATTCGCACTAC-
1 GTGCCTACTGATTCGCACTACA
24547225 GTGCCTACTG
1 GTGCCTACTG
24547235 CTTAGTACTT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
21 11 0.26
22 27 0.64
23 4 0.10
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (22 bp):
GTGCCTACTGATTCGCACTACA
Found at i:24552754 original size:12 final size:12
Alignment explanation
Indices: 24552739--24552771 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
24552729 CACTGCCTTA
24552739 CACACGGCCTAC
1 CACACGGCCTAC
*
24552751 CACACGGCCTAT
1 CACACGGCCTAC
24552763 CACACGGCC
1 CACACGGCC
24552772 GTGTGGCGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.48, G:0.18, T:0.09
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:24560548 original size:29 final size:28
Alignment explanation
Indices: 24560494--24560548 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
24560484 ACGGACGACC
24560494 ACACAGGCGTGTCTAGGCCGTGTGAAGG
1 ACACAGGCGTGTCTAGGCCGTGTGAAGG
* *
24560522 ACACGGGCGTGTGCTTGGCCGTGTGAA
1 ACACAGGCGTGT-CTAGGCCGTGTGAA
24560549 AACCCTTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.18, C:0.22, G:0.40, T:0.20
Consensus pattern (28 bp):
ACACAGGCGTGTCTAGGCCGTGTGAAGG
Found at i:24563179 original size:25 final size:25
Alignment explanation
Indices: 24563151--24563261 Score: 91
Period size: 25 Copynumber: 4.4 Consensus size: 25
24563141 ACTTGTAATT
* * *
24563151 CCTTTGTGGTGATTTATTTGGGAAG
1 CCTTTGTGGTGAGTTACTTGGAAAG
* ** *
24563176 CCTTTGTGGCGAGTTACTTATAAAA
1 CCTTTGTGGTGAGTTACTTGGAAAG
* * *
24563201 CCTTTATGGTGATTTATTTGCG-AAG
1 CCTTTGTGGTGAGTTACTTG-GAAAG
24563226 CCTTTGTGGT-AGGTTACTTGGAAAG
1 CCTTTGTGGTGA-GTTACTTGGAAAG
*
24563251 CCTATGTGGTG
1 CCTTTGTGGTG
24563262 TAATGTCTAG
Statistics
Matches: 64, Mismatches: 18, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
24 2 0.03
25 62 0.97
ACGTcount: A:0.20, C:0.13, G:0.28, T:0.40
Consensus pattern (25 bp):
CCTTTGTGGTGAGTTACTTGGAAAG
Found at i:24563182 original size:50 final size:50
Alignment explanation
Indices: 24563128--24563234 Score: 144
Period size: 50 Copynumber: 2.1 Consensus size: 50
24563118 AAGCCAAGTA
* ** * *
24563128 TTTGTGGC-ATGTCACTTGTAATTCCTTTGTGGTGATTTATTTGGGAAGCC
1 TTTGTGGCGA-GTCACTTATAAAACCTTTATGGTGATTTATTTGCGAAGCC
*
24563178 TTTGTGGCGAGTTACTTATAAAACCTTTATGGTGATTTATTTGCGAAGCC
1 TTTGTGGCGAGTCACTTATAAAACCTTTATGGTGATTTATTTGCGAAGCC
24563228 TTTGTGG
1 TTTGTGG
24563235 TAGGTTACTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
50 49 0.98
51 1 0.02
ACGTcount: A:0.19, C:0.13, G:0.25, T:0.43
Consensus pattern (50 bp):
TTTGTGGCGAGTCACTTATAAAACCTTTATGGTGATTTATTTGCGAAGCC
Found at i:24563261 original size:50 final size:50
Alignment explanation
Indices: 24563155--24563261 Score: 135
Period size: 50 Copynumber: 2.1 Consensus size: 50
24563145 GTAATTCCTT
* * * *
24563155 TGTGGTGATTTATTTGGGAAGCCTTTGTGGCGAGTTACTTATAAAACCTT
1 TGTGGTGATTTATTTGCGAAGCCTTTGTGGAGAGTTACTTAGAAAACCTA
* * *
24563205 TATGGTGATTTATTTGCGAAGCCTTTGTGGTAG-GTTACTTGGAAAGCCTA
1 TGTGGTGATTTATTTGCGAAGCCTTTGTGG-AGAGTTACTTAGAAAACCTA
24563255 TGTGGTG
1 TGTGGTG
24563262 TAATGTCTAG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 47 0.98
51 1 0.02
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (50 bp):
TGTGGTGATTTATTTGCGAAGCCTTTGTGGAGAGTTACTTAGAAAACCTA
Found at i:24570912 original size:40 final size:40
Alignment explanation
Indices: 24570848--24571030 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
24570838 GCTACTCGTT
24570848 CAAATGCCTTCAGGA-TATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCAGGACT-TAGCCCGGTTATAGTAACTCGCA
* *
24570888 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCAGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
24570928 CCAATGCCTTCAGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCAGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
24570967 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCAGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
24571008 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCAGGACTTAGCCCG
24571031 AACATCATTC
Statistics
Matches: 119, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 72 0.61
41 15 0.13
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:24571016 original size:79 final size:79
Alignment explanation
Indices: 24570848--24571030 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 79
24570838 GCTACTCGTT
* *
24570848 CAAATGCCTTCAGGATATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAA-GCCTTCAGGCT-TAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
24570913 ATTTAGTAACTCGCAC
64 ATATAGTAACTAGCAC
* * **
24570929 CAATGCCTTCAGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCAGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
24570992 ATATGGTCACTTAGCA-
64 ATATAGTAAC-TAGCAC
*
24571008 CAAAGCCTTCGGGACTTAGCCCG
1 CAAAGCCTTCAGG-CTTAGCCCG
24571031 AACATCATTC
Statistics
Matches: 86, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
78 4 0.05
79 56 0.65
80 23 0.27
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAAGCCTTCAGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCAC
Found at i:24579117 original size:39 final size:40
Alignment explanation
Indices: 24579000--24579182 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
24578990 GCTACTCGTT
*
24579000 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
24579040 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
24579080 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
24579119 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
24579160 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
24579183 ACATCATTCG
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:24579144 original size:79 final size:80
Alignment explanation
Indices: 24579002--24579182 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
24578992 TACTCGTTCA
* *
24579002 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
24579067 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
* **
24579082 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
24579144 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
24579161 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
24579183 ACATCATTCG
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 4 0.05
79 58 0.67
80 25 0.29
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:24593933 original size:50 final size:50
Alignment explanation
Indices: 24593874--24594010 Score: 193
Period size: 50 Copynumber: 2.7 Consensus size: 50
24593864 ATATGAGATC
* * * * *
24593874 CCATGTAAGATCATGTTTGGGACATGGAATTGGCATCGATGTGTGTGATT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGAAT
* *
24593924 CCATGTAAGACCATGTCTGGAACATAGCATTGGCATCGATATGTGTGAAT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGAAT
* *
24593974 CCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
24594011 TTACTATGTG
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGAAT
Found at i:24597966 original size:20 final size:20
Alignment explanation
Indices: 24597937--24597981 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
24597927 AGCACATGTA
*
24597937 TTCATAAAATTTCATAATTT
1 TTCATAAAATTTCACAATTT
* *
24597957 TTCATCAAATTTTACAATTT
1 TTCATAAAATTTCACAATTT
24597977 TTCAT
1 TTCAT
24597982 TTGAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTCACAATTT
Found at i:24600994 original size:40 final size:40
Alignment explanation
Indices: 24600945--24601228 Score: 414
Period size: 40 Copynumber: 7.1 Consensus size: 40
24600935 CGGAATTTAA
** * *
24600945 CCGGATATAGCT-ACTCGTTCAAATGCTTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24600985 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24601025 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24601064 CCAGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
*
24601104 CCGGATATAGTAACTCGCACAAATGCATTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
24601144 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
24601184 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
24601224 CCGGA
1 CCGGA
24601229 CATCATTCGA
Statistics
Matches: 220, Mismatches: 18, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.15
40 182 0.83
41 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:24609153 original size:40 final size:40
Alignment explanation
Indices: 24609071--24609353 Score: 414
Period size: 40 Copynumber: 7.1 Consensus size: 40
24609061 TCGAATTTAA
** *
24609071 CCGGATATAGCT-ACTCGTTCAAATG-CTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24609110 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24609150 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24609189 CCAGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
*
24609229 CCGGATATAGTAACTCGCACAAATGCATTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
24609269 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
24609309 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
24609349 CCGGA
1 CCGGA
24609354 CATCATTCGA
Statistics
Matches: 220, Mismatches: 17, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
38 3 0.01
39 51 0.23
40 162 0.74
41 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:24612723 original size:21 final size:20
Alignment explanation
Indices: 24612697--24612749 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
24612687 TTTTGTGCCT
24612697 CTAAACCCTAGACCCCTAACC
1 CTAAACCCTA-ACCCCTAACC
*
24612718 CTAAACCCTAAGCCCTAAGCC
1 CTAAACCCTAACCCCTAA-CC
* *
24612739 ATGAACCCTAA
1 CTAAACCCTAA
24612750 AAAACTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.36, C:0.42, G:0.08, T:0.15
Consensus pattern (20 bp):
CTAAACCCTAACCCCTAACC
Found at i:24613365 original size:6 final size:6
Alignment explanation
Indices: 24613356--24613387 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
24613346 GGAGAATATT
24613356 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AG
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AG
24613388 GGAGAATAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:24613403 original size:42 final size:40
Alignment explanation
Indices: 24613324--24613407 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 40
24613314 AGAATGAAGG
**
24613324 AAAACAAAAAAAAAAGAAAGAAGGAGAATATTAGAAAAAGA
1 AAAACAAAAAAAAAAGAAAGAAGGAGAATAGGAG-AAAAGA
* *
24613365 AAAAGAAAAAGAAAAAGAAA-AAGGGAGAATAGGGGAAAAGA
1 AAAACAAAAA-AAAAAGAAAGAA-GGAGAATAGGAGAAAAGA
24613406 AA
1 AA
24613408 CGTGAGAGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 19 0.51
42 18 0.49
ACGTcount: A:0.71, C:0.01, G:0.23, T:0.05
Consensus pattern (40 bp):
AAAACAAAAAAAAAAGAAAGAAGGAGAATAGGAGAAAAGA
Found at i:24615396 original size:5 final size:5
Alignment explanation
Indices: 24615386--24615417 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
24615376 TTGTGTGTTC
24615386 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
24615418 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:24615400 original size:9 final size:9
Alignment explanation
Indices: 24615386--24615416 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
24615376 TTGTGTGTTC
24615386 TTTATTTTA
1 TTTATTTTA
24615395 TTTATTTTA
1 TTTATTTTA
24615404 TTTTATTTTA
1 -TTTATTTTA
24615414 TTT
1 TTT
24615417 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:24619839 original size:5 final size:5
Alignment explanation
Indices: 24619829--24619860 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
24619819 TTGTGTGTTC
24619829 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
24619861 TCACAGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:24619843 original size:9 final size:9
Alignment explanation
Indices: 24619829--24619859 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
24619819 TTGTGTGTTC
24619829 TTTATTTTA
1 TTTATTTTA
24619838 TTTATTTTA
1 TTTATTTTA
24619847 TTTTATTTTA
1 -TTTATTTTA
24619857 TTT
1 TTT
24619860 TTCACAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:24632650 original size:34 final size:35
Alignment explanation
Indices: 24632612--24632688 Score: 111
Period size: 34 Copynumber: 2.2 Consensus size: 35
24632602 TTCTTTTTCT
*
24632612 AATTTTCCATGGATGATTCACC-AAATATCAACTA
1 AATTTTCCATGGATAATTCACCAAAATATCAACTA
* *
24632646 AATTTTCCATGGGTAATTCACCAAAAATATCTACTA
1 AATTTTCCATGGATAATTCACC-AAAATATCAACTA
24632682 AATTTTC
1 AATTTTC
24632689 TTAATGGCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 20 0.53
36 18 0.47
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (35 bp):
AATTTTCCATGGATAATTCACCAAAATATCAACTA
Found at i:24667670 original size:42 final size:41
Alignment explanation
Indices: 24667532--24667679 Score: 145
Period size: 42 Copynumber: 3.5 Consensus size: 41
24667522 GTTCCAAACG
** *
24667532 TGGTCTTACATGGGATCTCACATCAATGCCATATCCAAGAAA
1 TGGTCTTACATGAAATCTCATATCAATGCCATATCCAAG-AA
* * * * * * * *
24667574 TGGTCTTATACGAATTTTCATTTCAACGCCATGTCCCAGAA
1 TGGTCTTACATGAAATCTCATATCAATGCCATATCCAAGAA
*
24667615 GTGGTCTTACATGAAATCTCATATCAATGCCATATCCTAGATA
1 -TGGTCTTACATGAAATCTCATATCAATGCCATATCCAAGA-A
24667658 TGGTCTTACATGATAA-CTCATA
1 TGGTCTTACATGA-AATCTCATA
24667680 CTGATGCTGA
Statistics
Matches: 84, Mismatches: 19, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.02
42 79 0.94
43 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (41 bp):
TGGTCTTACATGAAATCTCATATCAATGCCATATCCAAGAA
Found at i:24671831 original size:24 final size:23
Alignment explanation
Indices: 24671778--24671872 Score: 72
Period size: 22 Copynumber: 4.2 Consensus size: 23
24671768 GTAAGAATAA
* *
24671778 CTGCATATGAATCTG-ATTTGTT
1 CTGCATATGAAACTGAAATTGTT
*
24671800 CTGTATATGAAACTGAAATTGCTT
1 CTGCATATGAAACTGAAATTG-TT
*
24671824 CTGCATATGTAACTG--ATCTGTT
1 CTGCATATGAAACTGAAAT-TGTT
** *
24671846 CTATATCTG-AACTGAAATTGTTT
1 CTGCATATGAAACTGAAATTG-TT
24671869 CTGC
1 CTGC
24671873 TACCTAATCG
Statistics
Matches: 57, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
21 5 0.09
22 25 0.44
23 12 0.21
24 15 0.26
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (23 bp):
CTGCATATGAAACTGAAATTGTT
Found at i:24671846 original size:46 final size:45
Alignment explanation
Indices: 24671778--24671872 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 45
24671768 GTAAGAATAA
* *
24671778 CTGCATATGAATCTGATTTGTTCTGTATATGAAACTGAAATTGCTT
1 CTGCATATGAATCTGATCTGTTCTATATATG-AACTGAAATTGCTT
* *
24671824 CTGCATATGTAA-CTGATCTGTTCTATATCTGAACTGAAATTGTTT
1 CTGCATATG-AATCTGATCTGTTCTATATATGAACTGAAATTGCTT
24671869 CTGC
1 CTGC
24671873 TACCTAATCG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
45 17 0.39
46 25 0.57
47 2 0.05
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (45 bp):
CTGCATATGAATCTGATCTGTTCTATATATGAACTGAAATTGCTT
Found at i:24672866 original size:17 final size:16
Alignment explanation
Indices: 24672822--24672890 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
24672812 TTTGGTTCGC
* *
24672822 TGTATTAGATTAGAGA
1 TGTATTGGATTAGAGG
24672838 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24672854 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
24672871 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24672887 TGTA
1 TGTA
24672891 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:24672955 original size:44 final size:45
Alignment explanation
Indices: 24672871--24672961 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
24672861 GGATTAGAGG
* * *
24672871 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
24672916 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
24672960 TG
1 TG
24672962 GAATAGAGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:24673146 original size:16 final size:16
Alignment explanation
Indices: 24673106--24673147 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
24673096 TTAATCATAT
24673106 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATTA
*
24673122 TT-AAATATATTTTTA
1 TTAAAATATATTATTA
24673137 TTAAAATATAT
1 TTAAAATATAT
24673148 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAAATATATTATTA
Found at i:24673267 original size:18 final size:17
Alignment explanation
Indices: 24673246--24673280 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24673236 TTATTATTAA
*
24673246 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24673264 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24673281 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24673322 original size:120 final size:120
Alignment explanation
Indices: 24673109--24673608 Score: 927
Period size: 120 Copynumber: 4.2 Consensus size: 120
24673099 ATCATATTTA
*
24673109 AACATAATTATTATTAAATATATTTTTATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
24673174 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
24673229 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
24673294 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
24673349 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
24673414 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
24673469 AACATAATTATTATTAAATATAATTTAA-T--AATGATAT-ATTTAATAAAATTCTTAATAATTA
1 AACATAATTATTATTAAATATATTTTAATTAAAAT-ATATAATTTAATAAAATTCTTAATAATTA
*
24673530 ATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
65 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
24673586 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
24673609 AACTTGAAAA
Statistics
Matches: 373, Mismatches: 6, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
117 103 0.28
118 4 0.01
119 1 0.00
120 265 0.71
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:24673746 original size:47 final size:46
Alignment explanation
Indices: 24673693--24673831 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
24673683 TTAATAATAA
*
24673693 TATATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATT
1 TATATAATTTCATAAAATTCTTAATAATAAATTTTCTTATAT-AATT
** * * *
24673740 TATATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-ATAATGA
1 TATATAATTTCATAAAATTCTTAATAATAAAT-T-TTCTTATATAAT-T
*
24673784 TATATAATTTCATAAAATTCTTAATAATAAATATTCTTATATAATT
1 TATATAATTTCATAAAATTCTTAATAATAAATTTTCTTATATAATT
24673830 TA
1 TA
24673832 CTAAATCATA
Statistics
Matches: 72, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
43 3 0.04
44 25 0.35
45 7 0.10
46 8 0.11
47 29 0.40
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (46 bp):
TATATAATTTCATAAAATTCTTAATAATAAATTTTCTTATATAATT
Found at i:24673788 original size:44 final size:43
Alignment explanation
Indices: 24673671--24673793 Score: 106
Period size: 44 Copynumber: 2.7 Consensus size: 43
24673661 TTATATTTTA
** *
24673671 ATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTGAT
1 ATTAAATATAATTTAATAAT-ATATATAA-TT--TAAAATAATTAAT
* * *
24673718 AATAAAT-T-TTCTTATATGAATTTATATAATTTAAAATAATTAAT
1 ATTAAATATAAT-TTA-AT-AATATATATAATTTAAAATAATTAAT
24673762 ATTAAATATAATTTAATAATGATATATAATTT
1 ATTAAATATAATTTAATAAT-ATATATAATTT
24673794 CATAAAATTC
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
43 3 0.05
44 28 0.46
45 5 0.08
46 7 0.11
47 15 0.25
48 3 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (43 bp):
ATTAAATATAATTTAATAATATATATAATTTAAAATAATTAAT
Found at i:24673821 original size:16 final size:16
Alignment explanation
Indices: 24673795--24673828 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
24673785 ATATAATTTC
24673795 ATAAAATTCTTA-ATA
1 ATAAAATTCTTATATA
24673810 ATAAATATTCTTATATA
1 ATAAA-ATTCTTATATA
24673827 AT
1 AT
24673829 TTACTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAAAATTCTTATATA
Found at i:24673848 original size:91 final size:91
Alignment explanation
Indices: 24673671--24673849 Score: 281
Period size: 91 Copynumber: 2.0 Consensus size: 91
24673661 TTATATTTTA
* *
24673671 ATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATG
1 ATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAATAATAAATATTCTTATATG
*
24673736 AATTTATATAATTTAAAATAATTAAT
66 AATTTATATAATATAAAATAATTAAT
*
24673762 ATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAAATATTCTTATAT-
1 ATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAATAATAAATATTCTTATATG
*
24673826 AATTTACTA-AATCATAATATAATT
66 AATTTA-TATAAT-ATAAAATAATT
24673850 TGAGAATTAT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
90 9 0.11
91 72 0.89
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (91 bp):
ATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAATAATAAATATTCTTATATG
AATTTATATAATATAAAATAATTAAT
Found at i:24674174 original size:66 final size:66
Alignment explanation
Indices: 24674068--24674198 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
24674058 CGCAAATGTG
* *
24674068 ATTTGAGTTCAAATTAGATTCATAGTAAGCTCAAATTTTTATTAATGCCAATGCCAACACTACCA
1 ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
24674133 C
66 C
* *
24674134 ATTTGGGTTCAAATTATACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
1 ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
24674199 AAACCTTTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.33
Consensus pattern (66 bp):
ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
C
Found at i:24681155 original size:26 final size:26
Alignment explanation
Indices: 24681095--24681229 Score: 85
Period size: 26 Copynumber: 5.4 Consensus size: 26
24681085 ATGGTTCAAG
*
24681095 ATAAATAATATATATA-C-ATTTT--
1 ATAAATAATATATAAATCAATTTTAA
24681117 A-AAATAA-AGTATAAATCAATTTTAA
1 ATAAATAATA-TATAAATCAATTTTAA
* *
24681142 ATAAATAATTTATAAAGCAA-TTTAGA
1 ATAAATAATATATAAATCAATTTTA-A
* *
24681168 GTAAATAATATATAAAAT-AATTTAAA
1 ATAAATAATATAT-AAATCAATTTTAA
*
24681194 AT-AATAATAATAATAAA-CGAA-TTAAA
1 ATAAATAAT-AT-ATAAATC-AATTTTAA
24681220 ATAAATAATA
1 ATAAATAATA
24681230 CGGTAAAACA
Statistics
Matches: 90, Mismatches: 8, Indels: 26
0.73 0.06 0.21
Matches are distributed among these distances:
20 1 0.01
21 11 0.12
22 2 0.02
23 5 0.06
25 11 0.12
26 44 0.49
27 16 0.18
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (26 bp):
ATAAATAATATATAAATCAATTTTAA
Found at i:24681195 original size:10 final size:12
Alignment explanation
Indices: 24681170--24681209 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
24681160 AATTTAGAGT
24681170 AAATAATATATA
1 AAATAATATATA
24681182 AAATAAT-T-TA
1 AAATAATATATA
24681192 AAATAATA-ATA
1 AAATAATATATA
24681203 ATAATAA
1 A-AATAA
24681210 ACGAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.36
11 4 0.16
12 12 0.48
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATAATATATA
Found at i:24681216 original size:27 final size:28
Alignment explanation
Indices: 24681171--24681229 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
24681161 ATTTAGAGTA
*
24681171 AATAATATATAAAATAATTTAAAAT-AAT
1 AATAATATATAAAAGAA-TTAAAATAAAT
*
24681199 AATAATA-ATAAACGAATTAAAATAAAT
1 AATAATATATAAAAGAATTAAAATAAAT
24681226 AATA
1 AATA
24681230 CGGTAAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 7 0.25
27 14 0.50
28 7 0.25
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (28 bp):
AATAATATATAAAAGAATTAAAATAAAT
Found at i:24681428 original size:47 final size:47
Alignment explanation
Indices: 24681296--24681477 Score: 136
Period size: 47 Copynumber: 3.7 Consensus size: 47
24681286 AAATTGTTCA
* *
24681296 AAATAAATATTATGA-ATGATTTATAATAAATAAAATAAATAAGTTTAATAAT
1 AAAT-AATA-TATGAGAT-ATTTA-AA-AAATAAAATAAATAAGCTTAAT-AC
** * * * * * *
24681348 AAAGCACATATGAAAAGATCTAAAATAATAAAAT-AATCAAGTTTAATAT
1 AAATAATATATG-AGATATTTAAAA-AATAAAATAAAT-AAGCTTAATAC
* *
24681397 AAATAATATATGAGATATTTTAAAAATAAAATAAATACGCTTAATAC
1 AAATAATATATGAGATATTTAAAAAATAAAATAAATAAGCTTAATAC
* *
24681444 AAATAGTATCTGAGATATTTAAAAAAT-AAATAAA
1 AAATAATATATGAGATATTTAAAAAATAAAATAAA
24681478 ATATGTAATA
Statistics
Matches: 107, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
46 7 0.07
47 40 0.37
48 11 0.10
49 15 0.14
50 23 0.21
51 7 0.07
52 4 0.04
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.31
Consensus pattern (47 bp):
AAATAATATATGAGATATTTAAAAAATAAAATAAATAAGCTTAATAC
Found at i:24683133 original size:28 final size:28
Alignment explanation
Indices: 24683101--24683184 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
24683091 AACTGTGATC
24683101 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
24683129 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
24683151 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
24683179 ACGTGT
1 ACGTGT
24683185 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:24683178 original size:101 final size:98
Alignment explanation
Indices: 24683002--24683285 Score: 352
Period size: 99 Copynumber: 2.8 Consensus size: 98
24682992 TGAGGTCGCA
* * * * *
24683002 TGTGTAGTACTAAGTGCAGGCTACTATACGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAA-T-TGGTCACGTGTGTAGTACTAAG
24683067 TGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
64 TGCAGGCTACTATGCGTACCCGAAAA-T-TGATCACG
* * **
24683104 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT-GGTCACGTGTGTAGTACTAAGT
* * * * *
24683169 GCAGGCTACTACGTGTACCGGATAATTGGTCACG
65 GCAGGCTACTATGCGTACCCGAAAATTGATCACG
* * * *
24683203 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGTACTATGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACGTGTGTAGTACTAAGTG
*
24683268 CAGGCTACCATGCGTACC
66 CAGGCTACTATGCGTACC
24683286 AGATAGCTTT
Statistics
Matches: 156, Mismatches: 25, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
98 35 0.22
99 44 0.28
100 2 0.01
101 43 0.28
102 32 0.21
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (98 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACGTGTGTAGTACTAAGTG
CAGGCTACTATGCGTACCCGAAAATTGATCACG
Found at i:24683219 original size:49 final size:49
Alignment explanation
Indices: 24683002--24683275 Score: 332
Period size: 51 Copynumber: 5.5 Consensus size: 49
24682992 TGAGGTCGCA
*** * *
24683002 TGTGTAGTACTAAGTGCAGGCTACTATACGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAA-T-TGGTCACG
* * * *
24683053 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAA-T-TGGTCACG
* * **
24683104 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATT-GGTCACG
*
24683154 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATTGGTCACG
* * * *
24683203 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATTGGTCACG
*
24683252 TGTGTAGTACTATGTGCAGGCTAC
1 TGTGTAGTACTAAGTGCAGGCTAC
24683276 CATGCGTACC
Statistics
Matches: 205, Mismatches: 17, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
49 77 0.38
50 45 0.22
51 83 0.40
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATTGGTCACG
Found at i:24683285 original size:49 final size:49
Alignment explanation
Indices: 24683002--24683290 Score: 326
Period size: 49 Copynumber: 5.8 Consensus size: 49
24682992 TGAGGTCGCA
* * * *
24683002 TGTGTAGTACTAAGTGCAGGCTACTATACGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-T-TGGTCACG
* * *
24683053 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-T-TGGTCACG
* * * **
24683104 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT-GGTCACG
* * *
24683154 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCACG
*** * * *
24683203 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCACG
* *
24683252 TGTGTAGTACTATGTGCAGGCTACCATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
24683291 GCTTTGGCTA
Statistics
Matches: 215, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
49 87 0.40
50 45 0.21
51 83 0.39
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCACG
Found at i:24685522 original size:8 final size:8
Alignment explanation
Indices: 24685520--24685545 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
24685510 TTAAAGAAAT
24685520 AAAAATAA
1 AAAAATAA
24685528 AAAAATAA
1 AAAAATAA
24685536 AAAAATAA
1 AAAAATAA
24685544 AA
1 AA
24685546 TAGATAACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:24686986 original size:11 final size:11
Alignment explanation
Indices: 24686970--24686999 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24686960 AATCCATTAT
24686970 CATATCATATA
1 CATATCATATA
24686981 CATATCATATA
1 CATATCATATA
*
24686992 CACATCAT
1 CATATCAT
24687000 TATAGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.33
Consensus pattern (11 bp):
CATATCATATA
Found at i:24691923 original size:50 final size:50
Alignment explanation
Indices: 24691855--24691997 Score: 241
Period size: 50 Copynumber: 2.9 Consensus size: 50
24691845 ACATAGTAAG
* * *
24691855 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATACCA
*
24691905 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATACCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATACCA
*
24691955 ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
24691998 CATAGCCTTA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 88 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATACCA
Found at i:24693157 original size:18 final size:18
Alignment explanation
Indices: 24693117--24693158 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
24693107 GAAATTATAC
24693117 ACATAG-CATATATTTGA
1 ACATAGTCATATATTTGA
* * *
24693134 AAATAGTCATGTATTTGT
1 ACATAGTCATATATTTGA
24693152 ACATAGT
1 ACATAGT
24693159 TCGGGTTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (18 bp):
ACATAGTCATATATTTGA
Found at i:24700992 original size:16 final size:18
Alignment explanation
Indices: 24700971--24701003 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
24700961 CATACTAGCT
24700971 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
24700987 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
24701004 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:24701626 original size:45 final size:45
Alignment explanation
Indices: 24701534--24701748 Score: 262
Period size: 45 Copynumber: 4.9 Consensus size: 45
24701524 ATTCATCCAT
* * *
24701534 CGACATT-TCGCCTGCTA-GCTCGAA-GCCC-AATA-TCATTTCAC
1 CGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCAC
* * *
24701575 CGACATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATATGAC
1 CGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
* *
24701620 CGACATTATAGCCTGCTAGGCTCAAAGGCTCGAATGGTATCTCAC
1 CGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
* * *
24701665 C-AGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCCCGC
1 CGA-CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
*
24701710 CGACATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 CGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
24701749 CCATACGATA
Statistics
Matches: 154, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
41 7 0.05
42 9 0.06
43 7 0.05
44 5 0.03
45 124 0.81
46 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
Found at i:24717644 original size:27 final size:27
Alignment explanation
Indices: 24717592--24717683 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
24717582 GCTCTTCTTT
* * * *
24717592 AGAGTTCGTTATACCTACTGTTCCTTC
1 AGAGTTCGTCATACATACTATCCCTTC
24717619 AGAGTTCGTCATACATACTATCCCTTCC
1 AGAGTTCGTCATACATACTATCCCTT-C
* * * * *
24717647 A-TGTTTGCCACATATACTATCCCTTC
1 AGAGTTCGTCATACATACTATCCCTTC
24717673 AGAGTTCGTCA
1 AGAGTTCGTCA
24717684 GGAATACTAT
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 2 0.04
27 47 0.92
28 2 0.04
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (27 bp):
AGAGTTCGTCATACATACTATCCCTTC
Found at i:24718135 original size:27 final size:27
Alignment explanation
Indices: 24718080--24718142 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
24718070 TGATCACCAA
* * *
24718080 AAAAGCTTCCATATTATATATTTCTAC
1 AAAAGCTTCCATATTATAGATTGCCAC
24718107 AAAAGCTTCCAT-TTCATAGATTGCCAC
1 AAAAGCTTCCATATT-ATAGATTGCCAC
*
24718134 AAAGGCTTC
1 AAAAGCTTC
24718143 TAATTTCTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (27 bp):
AAAAGCTTCCATATTATAGATTGCCAC
Found at i:24732515 original size:16 final size:17
Alignment explanation
Indices: 24732494--24732526 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24732484 ATTTAATCCT
*
24732494 AATT-AAATTGGATATA
1 AATTAAAATTGAATATA
24732510 AATTAAAATTGAATATA
1 AATTAAAATTGAATATA
24732527 TCATGAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (17 bp):
AATTAAAATTGAATATA
Found at i:24735597 original size:30 final size:30
Alignment explanation
Indices: 24735563--24735623 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
24735553 TTCCCGAGCC
24735563 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
24735593 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
24735623 T
1 T
24735624 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:24736127 original size:95 final size:95
Alignment explanation
Indices: 24736015--24736204 Score: 380
Period size: 95 Copynumber: 2.0 Consensus size: 95
24736005 CATTGAATTA
24736015 TCATACATAAATGTGATTTCTATGATTATGGATATTATGGGAAATTGTAAGTTTATATGATTTTT
1 TCATACATAAATGTGATTTCTATGATTATGGATATTATGGGAAATTGTAAGTTTATATGATTTTT
24736080 AATAAGGCAATGTGTAATTTAATGTTATTG
66 AATAAGGCAATGTGTAATTTAATGTTATTG
24736110 TCATACATAAATGTGATTTCTATGATTATGGATATTATGGGAAATTGTAAGTTTATATGATTTTT
1 TCATACATAAATGTGATTTCTATGATTATGGATATTATGGGAAATTGTAAGTTTATATGATTTTT
24736175 AATAAGGCAATGTGTAATTTAATGTTATTG
66 AATAAGGCAATGTGTAATTTAATGTTATTG
24736205 CCTTGATATT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.44
Consensus pattern (95 bp):
TCATACATAAATGTGATTTCTATGATTATGGATATTATGGGAAATTGTAAGTTTATATGATTTTT
AATAAGGCAATGTGTAATTTAATGTTATTG
Found at i:24736532 original size:64 final size:63
Alignment explanation
Indices: 24736453--24736636 Score: 201
Period size: 67 Copynumber: 2.8 Consensus size: 63
24736443 AGACATTATG
* * *
24736453 ATGTAGCTAGGTCGCATGGTTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGG-TGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * *
24736517 ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATG-GTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
24736582 AA
62 AA
* * * *
24736584 AT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCAT-GGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
24736637 CGAACTATAT
Statistics
Matches: 101, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
65 1 0.01
66 22 0.22
67 33 0.33
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:24739159 original size:16 final size:16
Alignment explanation
Indices: 24739140--24739180 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
24739130 AATTATTAAT
*
24739140 AATTCAATAATTGAAA
1 AATTAAATAATTGAAA
24739156 AATTAAATAATTGAATAA
1 AATTAAATAATTG-A-AA
24739174 AATTAAA
1 AATTAAA
24739181 ATTTAGGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.55
17 1 0.05
18 9 0.41
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (16 bp):
AATTAAATAATTGAAA
Found at i:24739941 original size:22 final size:19
Alignment explanation
Indices: 24739902--24739943 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
24739892 TGCAAAGTTG
24739902 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
24739921 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
24739943 A
1 A
24739944 AAGGTTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:24746309 original size:35 final size:35
Alignment explanation
Indices: 24746240--24746314 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
24746230 ATGTTATTTC
24746240 ACATACATACTTATTAAATCGAAATAATATCTTGT
1 ACATACATACTTATTAAATCGAAATAATATCTTGT
*
24746275 ACATACATACTTATTAAATCGAAATAATCTCTTGT
1 ACATACATACTTATTAAATCGAAATAATATCTTGT
*
24746310 TCATA
1 ACATA
24746315 TTCTTATGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.37
Consensus pattern (35 bp):
ACATACATACTTATTAAATCGAAATAATATCTTGT
Found at i:24748265 original size:39 final size:39
Alignment explanation
Indices: 24748207--24748423 Score: 163
Period size: 40 Copynumber: 5.6 Consensus size: 39
24748197 AATCAAGCAT
* ** * *
24748207 CTTCGGGT-TT-AGCCGGATATAACCACTCGCACAAGGC
1 CTTCGGGTCTTAACCCGGATATAGTCACTAGCACAATGC
* *
24748244 CTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAACCCGGATATAGTCACTAGCA-CAATGC
* * *
24748284 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAACCCGGATATAGTCACTAGCAC-AATGC
* ** * *
24748324 CTTCGGATCTTAGTCCGGATATAGTCGCTAGCACAAAGC
1 CTTCGGGTCTTAACCCGGATATAGTCACTAGCACAATGC
* ** * * *
24748363 CTTCGGATCTT-AGTCGGATGTAG-CGCTTAGCACAAAAGC
1 CTTCGGGTCTTAACCCGGATATAGTCAC-TAGCAC-AATGC
* *
24748402 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAACCCGGATAT
24748424 CATTCGAGTA
Statistics
Matches: 147, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
37 11 0.07
38 16 0.11
39 45 0.31
40 75 0.51
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CTTCGGGTCTTAACCCGGATATAGTCACTAGCACAATGC
Found at i:24748289 original size:40 final size:40
Alignment explanation
Indices: 24748242--24748423 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
24748232 CTCGCACAAG
* * * * *
24748242 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGATCTTAGCCCGGATATAGTCGCTAGCACAAAT
24748282 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTC-GGATCTTAGCCCGGATATAGTCGCTAGCACAAAT
*
24748322 GCCTTCGGATCTTAGTCCGGATATAGTCGCTAGCACAAA-
1 GCCTTCGGATCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
24748361 GCCTTCGGATCTTAG-TCGGATGTAG-CGCTTAGCACAAAA
1 GCCTTCGGATCTTAGCCCGGATATAGTCGC-TAGCACAAAT
24748400 GCCTTCGGGA-CTTAGCCCGGATAT
1 GCCTTC-GGATCTTAGCCCGGATAT
24748424 CATTCGAGTA
Statistics
Matches: 126, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
37 3 0.02
38 17 0.13
39 29 0.23
40 75 0.60
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGATCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:24748414 original size:78 final size:80
Alignment explanation
Indices: 24748242--24748423 Score: 221
Period size: 78 Copynumber: 2.3 Consensus size: 80
24748232 CTCGCACAAG
* * * *
24748242 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATA
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
24748307 GTCGCTAGCACAAAT
66 GTCGCTAGCACAAAA
* * * *
24748322 GCCTTC-GGATCTTAGTCCGGATATAGTCGCTAGCACAAA-GCCTTC-GGATCTTAG-TCGGATG
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGATA
24748383 TAG-CGCTTAGCACAAAA
64 TAGTCGC-TAGCACAAAA
24748400 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
24748424 CATTCGAGTA
Statistics
Matches: 88, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
77 3 0.03
78 39 0.44
79 16 0.18
80 30 0.34
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
GTCGCTAGCACAAAA
Found at i:24756624 original size:40 final size:40
Alignment explanation
Indices: 24756577--24756762 Score: 165
Period size: 41 Copynumber: 4.6 Consensus size: 40
24756567 CTCACACAAG
* *
24756577 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAACCCGGATATAGTCACTAGCACAAAT
* * *
24756617 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAACCCGGATATAGTCACTAGCACAAAT
* ** * * *
24756657 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGTCTTAACCCGGATATAGTCAC-TAGCACAAAT
* * ** * * * *
24756698 GCCTTCAGATCTTAGTCTGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGTCTTAACCCGGATATAGTCAC-TAGCACAAAT
* *
24756739 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAACCCGGATAT
24756763 CATTCGAGTA
Statistics
Matches: 127, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 61 0.48
41 66 0.52
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAACCCGGATATAGTCACTAGCACAAAT
Found at i:24756753 original size:41 final size:41
Alignment explanation
Indices: 24756607--24756760 Score: 197
Period size: 41 Copynumber: 3.8 Consensus size: 41
24756597 ATATGGTCAC
* * * *
24756607 TAGCATAAATGCCTTCGGGA-CTTAGCCCGGATATAGTCGC-
1 TAGCACAAAAGCCTTC-GGATCTTAGTCCGGATGTAGTCGCT
*
24756647 TAGCACAAATGCCTTCGGATCTTAGTCCGGATGTAGTCGCT
1 TAGCACAAAAGCCTTCGGATCTTAGTCCGGATGTAGTCGCT
* *
24756688 TAGCACAAAAGCCTTCAGATCTTAGTCTGGATGTAGTCGCT
1 TAGCACAAAAGCCTTCGGATCTTAGTCCGGATGTAGTCGCT
*
24756729 TAGCACAAAAGCCTTCGGGA-CTTAGCCCGGAT
1 TAGCACAAAAGCCTTC-GGATCTTAGTCCGGAT
24756761 ATCATTCGAG
Statistics
Matches: 102, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.03
40 33 0.32
41 64 0.63
42 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (41 bp):
TAGCACAAAAGCCTTCGGATCTTAGTCCGGATGTAGTCGCT
Found at i:24757993 original size:38 final size:38
Alignment explanation
Indices: 24757951--24758026 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
24757941 CAAGAACTCC
*
24757951 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCATTCCTTAGAATTTTCGGCCAAAAGAAATGAA
24757989 TTCCTCATTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCATTCCTTAGAATTTTCGGCCAAAAGAAATGAA
24758027 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCATTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:24774430 original size:36 final size:36
Alignment explanation
Indices: 24774379--24774451 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
24774369 TTCATTTCAA
24774379 ATCTCAACAAAAATGGAGCTTAAA-TTAAT-TTAAGGG
1 ATCTCAACAAAAATGG-G-TTAAAGTTAATATTAAGGG
*
24774415 ATCTCAACAATAATGGGTTAAAGGTTAATATTAAGGG
1 ATCTCAACAAAAATGGGTTAAA-GTTAATATTAAGGG
24774452 TAATACAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
34 5 0.15
35 1 0.03
36 20 0.61
37 7 0.21
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (36 bp):
ATCTCAACAAAAATGGGTTAAAGTTAATATTAAGGG
Found at i:24781411 original size:15 final size:13
Alignment explanation
Indices: 24781382--24781408 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24781372 GCTCGGCAAG
24781382 GACACGCCCGTGT
1 GACACGCCCGTGT
24781395 GACACGCCCGTGT
1 GACACGCCCGTGT
24781408 G
1 G
24781409 TGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:24781836 original size:48 final size:48
Alignment explanation
Indices: 24781765--24781908 Score: 209
Period size: 48 Copynumber: 3.0 Consensus size: 48
24781755 TACATTAGGG
24781765 CGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCAT
1 CGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCAT
* ** * *
24781813 CGATATGTGATCCCATATAAGACCATGCCTGAGACTTGGCATTGGCAT
1 CGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCAT
* * *
24781861 CGATATTTGATCCCATGTAAGA-CATATCTAGGATATGGCATTGGCAT
1 CGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCAT
24781908 C
1 C
24781909 TTACTATGCG
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 20 0.24
48 63 0.76
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (48 bp):
CGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCAT
Found at i:24787059 original size:40 final size:40
Alignment explanation
Indices: 24787015--24787170 Score: 217
Period size: 40 Copynumber: 3.9 Consensus size: 40
24787005 GGATATAGCT
* *
24787015 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
24787055 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
*
24787095 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* *
24787135 ACTCACACAAATGTCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
24787171 CATCCGAATA
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
40 99 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:24795478 original size:24 final size:24
Alignment explanation
Indices: 24795451--24795497 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
24795441 ATTGAAATGG
24795451 ATTG-ATTTAGTATATGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
24795475 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
24795498 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:24803412 original size:40 final size:40
Alignment explanation
Indices: 24803345--24803516 Score: 206
Period size: 40 Copynumber: 4.3 Consensus size: 40
24803335 ACCCAAGTAT
* *
24803345 CTTCGGGAT-TTAG-CCAGATATAACAACTCGCGCAAATGC
1 CTTCGGG-TCTTAGCCCAGATATAGCAACTCGCACAAATGC
24803384 CTTCGGGTCTTAGCCCAGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCAGATATAGCAACTCGCACAAATGC
* * *
24803424 CTTCGGGTCTTAGCCCAGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCAGATAT-AGCAACTCGCACAAATGC
* * * **
24803464 CTTCGGGACATAGCCCGGATATAGCAACTCGCATGAATGC
1 CTTCGGGTCTTAGCCCAGATATAGCAACTCGCACAAATGC
*
24803504 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
24803517 TCCGGTTATC
Statistics
Matches: 115, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 99 0.86
41 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCAGATATAGCAACTCGCACAAATGC
Found at i:24819731 original size:11 final size:11
Alignment explanation
Indices: 24819715--24819747 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
24819705 AAATGCTTAC
24819715 TCTATGTATTT
1 TCTATGTATTT
24819726 TCTATGTATTT
1 TCTATGTATTT
24819737 TCTATGT-TTT
1 TCTATGTATTT
24819747 T
1 T
24819748 AGTGAATCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.15, C:0.09, G:0.09, T:0.67
Consensus pattern (11 bp):
TCTATGTATTT
Found at i:24824670 original size:25 final size:25
Alignment explanation
Indices: 24824642--24824745 Score: 79
Period size: 25 Copynumber: 4.2 Consensus size: 25
24824632 ATAAATGGGT
*
24824642 AGCTCTTTCGATCCATATAATAGGA
1 AGCTCTTTCGAGCCATATAATAGGA
* * **
24824667 AGCTCATGT-GAGCCATGTAACGGGA
1 AGCTC-TTTCGAGCCATATAATAGGA
* *
24824692 AGCTCTTGCGAGCCA-ATTATAGGGA
1 AGCTCTTTCGAGCCATATAATA-GGA
* * *
24824717 AGCTCATACGAGCCATA-AATGGGA
1 AGCTCTTTCGAGCCATATAATAGGA
24824741 AGCTC
1 AGCTC
24824746 AATAGAGCCA
Statistics
Matches: 60, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
24 11 0.18
25 46 0.77
26 3 0.05
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (25 bp):
AGCTCTTTCGAGCCATATAATAGGA
Found at i:24824696 original size:50 final size:48
Alignment explanation
Indices: 24824612--24824745 Score: 135
Period size: 50 Copynumber: 2.7 Consensus size: 48
24824602 ATTCATATTC
* * *
24824612 AGGAATGCTCATGTGAG-CATATAAATGGGTAGCTCTTTCGATCCATATAAT
1 AGGAA-GCTCATGTGAGCCAT-T-AATGGGAAGCTCTTGCGAGCCA-ATAAT
* *
24824663 AGGAAGCTCATGTGAGCCATGTAACGGGAAGCTCTTGCGAGCCAATTAT
1 AGGAAGCTCATGTGAGCCAT-TAATGGGAAGCTCTTGCGAGCCAATAAT
** *
24824712 AGGGAAGCTCATACGAGCCATAAATGGGAAGCTC
1 A-GGAAGCTCATGTGAGCCATTAATGGGAAGCTC
24824746 AATAGAGCCA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
49 16 0.23
50 46 0.65
51 9 0.13
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (48 bp):
AGGAAGCTCATGTGAGCCATTAATGGGAAGCTCTTGCGAGCCAATAAT
Found at i:24824765 original size:24 final size:24
Alignment explanation
Indices: 24824714--24824822 Score: 84
Period size: 24 Copynumber: 4.5 Consensus size: 24
24824704 CCAATTATAG
*
24824714 GGAAGCTCATACGAGCCATAAATG
1 GGAAGCTCATACGAGCCATAAATC
24824738 GGAAGCTCAATA-GAGCCA-AATATC
1 GGAAGCTC-ATACGAGCCATAA-ATC
** *
24824762 GGAAAGCTC-TGAAAAGCCATTAATC
1 GG-AAGCTCAT-ACGAGCCATAAATC
24824787 AGGAAGCTCATGA-GAGCCAT-AATC
1 -GGAAGCTCAT-ACGAGCCATAAATC
24824811 AGGAAGCTCATA
1 -GGAAGCTCATA
24824823 AGATCTATGA
Statistics
Matches: 73, Mismatches: 4, Indels: 17
0.78 0.04 0.18
Matches are distributed among these distances:
23 4 0.05
24 34 0.47
25 29 0.40
26 6 0.08
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.17
Consensus pattern (24 bp):
GGAAGCTCATACGAGCCATAAATC
Found at i:24839138 original size:30 final size:30
Alignment explanation
Indices: 24839092--24839151 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
24839082 TTTCCGAGCC
24839092 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
24839122 TAGGGGCAAAAA-TGTAATTTTGGAAAAGTT
1 TAGGGG-AAAAAGTGTAATTATGCAAAAGTT
24839152 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.42, C:0.03, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:24843556 original size:43 final size:43
Alignment explanation
Indices: 24843503--24843610 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 43
24843493 TATCCCAGAT
* * *
24843503 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAAAC
1 ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCCAAAC
* * * *
24843546 A-GAGTCTTACACGAAATCGA-TTAACGATGCCAATGTCCCAGAC
1 ATG-GTCTTACATGTAATC-ACATAACGATGCCAATGTCCCAAAC
24843589 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
24843611 CTCAAAAACC
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
42 2 0.04
43 47 0.92
44 2 0.04
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCCAAAC
Found at i:24848966 original size:203 final size:203
Alignment explanation
Indices: 24848617--24849002 Score: 754
Period size: 203 Copynumber: 1.9 Consensus size: 203
24848607 CATTTAAGAC
24848617 ATTCATCAAGAGTACATGACATTTCATCAAACACTCGTATTGTATTCTCGAGCCAAAACTAAGCT
1 ATTCATCAAGAGTACATGACATTTCATCAAACACTCGTATTGTATTCTCGAGCCAAAACTAAGCT
*
24848682 CTCTCAACATCATCTTCAATTGTAGCACGAAACTCTTCAGCCCTATATTTTCTAATTTTATCAAT
66 CTCTCAACATCATCTTCAATTGTAGCACGAAACTCTTCAACCCTATATTTTCTAATTTTATCAAT
*
24848747 CGGAGGCTTATTTAATTGAATCGAATTCATAGCTTGTGGCATTACAGGGACTTATCGTATCGTAT
131 CAGAGGCTTATTTAATTGAATCGAATTCATAGCTTGTGGCATTACAGGGACTTATCGTATCGTAT
24848812 CGTATTGT
196 CGTATTGT
24848820 ATTCATCAAGAGTACATGACATTTCATCAAACACTCGTATTGTATTCTCGAGCCAAAACTAAGCT
1 ATTCATCAAGAGTACATGACATTTCATCAAACACTCGTATTGTATTCTCGAGCCAAAACTAAGCT
24848885 CTCTCAACATCATCTTCAATTGTAGCACGAAACTCTTCAACCCTATATTTTCTAATTTTATCAAT
66 CTCTCAACATCATCTTCAATTGTAGCACGAAACTCTTCAACCCTATATTTTCTAATTTTATCAAT
24848950 CAGAGGCTTATTTAATTGAATCGAATTCATAGCTTGTGGCATTACAGGGACTT
131 CAGAGGCTTATTTAATTGAATCGAATTCATAGCTTGTGGCATTACAGGGACTT
24849003 GTGGAGGATT
Statistics
Matches: 181, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
203 181 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (203 bp):
ATTCATCAAGAGTACATGACATTTCATCAAACACTCGTATTGTATTCTCGAGCCAAAACTAAGCT
CTCTCAACATCATCTTCAATTGTAGCACGAAACTCTTCAACCCTATATTTTCTAATTTTATCAAT
CAGAGGCTTATTTAATTGAATCGAATTCATAGCTTGTGGCATTACAGGGACTTATCGTATCGTAT
CGTATTGT
Found at i:24850960 original size:43 final size:43
Alignment explanation
Indices: 24850795--24850961 Score: 124
Period size: 43 Copynumber: 3.9 Consensus size: 43
24850785 CAAAAGCTCG
* * * * *
24850795 TACAATGCC-ATATCCCAGATATGGTCCTACATGTTATCAC-A
1 TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCTCAA
* * * * * * *
24850836 TATCGATGCCATTATCCTAGACAGGGTCTTACACGAAAT-TGAT
1 TA-CAATGCCAATATCCCAGACATGGTCTTACACGTAATCTCAA
* * * * *
24850879 TAACGATGCCAATGTTCCAGATATGGTCTTATACGTAATCTCAA
1 T-ACAATGCCAATATCCCAGACATGGTCTTACACGTAATCTCAA
* *
24850923 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 TACAATGCCAATATCCCAGACATGGTCTTACACGTAATC
24850962 ATATCTCGAT
Statistics
Matches: 94, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 82 0.87
44 4 0.04
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (43 bp):
TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCTCAA
Found at i:24854275 original size:25 final size:25
Alignment explanation
Indices: 24854177--24854269 Score: 104
Period size: 25 Copynumber: 3.8 Consensus size: 25
24854167 TCATTAGGGA
*
24854177 TTACCGATTCTTAGCTCGTATGAGC
1 TTACCGATTCTAAGCTCGTATGAGC
*
24854202 TTACCGATTGC-AA-CTGGTGA-GAGC
1 TTACCGATT-CTAAGCTCGT-ATGAGC
*
24854226 TTACCGATTCTAAGCTCATATGAGC
1 TTACCGATTCTAAGCTCGTATGAGC
24854251 TTACCGATT-TATAGCTCGT
1 TTACCGATTCTA-AGCTCGT
24854270 GAGAGCATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
23 1 0.02
24 22 0.39
25 33 0.58
26 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (25 bp):
TTACCGATTCTAAGCTCGTATGAGC
Found at i:24859339 original size:42 final size:42
Alignment explanation
Indices: 24859276--24859359 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
24859266 TAACCTAATT
*
24859276 GGGAAAATAATTCCCTCATTCTAATAAACTACTAAAAGATAA
1 GGGAAAATAATTCCATCATTCTAATAAACTACTAAAAGATAA
*
24859318 GGGAAAATAATTCCATTATTCTAATAAACTACTAAAAGATAA
1 GGGAAAATAATTCCATCATTCTAATAAACTACTAAAAGATAA
24859360 AATAAAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.27
Consensus pattern (42 bp):
GGGAAAATAATTCCATCATTCTAATAAACTACTAAAAGATAA
Found at i:24859367 original size:42 final size:42
Alignment explanation
Indices: 24859278--24859372 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 42
24859268 ACCTAATTGG
* **
24859278 GAAAATAATTCCCTCATTCTAATAAACTACTAAAAGATAAGG
1 GAAAATAATTCCATCATTCTAATAAACTACTAAAAGATAAAA
*
24859320 GAAAATAATTCCATTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAATTCCATCATTCTAATAAACTACTAAAAGATAAAA
*
24859362 TAAAAT-ATTCC
1 GAAAATAATTCC
24859373 TAGAATATCT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 5 0.10
42 43 0.90
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (42 bp):
GAAAATAATTCCATCATTCTAATAAACTACTAAAAGATAAAA
Found at i:24859420 original size:19 final size:19
Alignment explanation
Indices: 24859396--24859442 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
24859386 ATGATTTATT
24859396 ATAAGATTTATCTACCTAA
1 ATAAGATTTATCTACCTAA
*
24859415 ATAAGATTTATCTACCTAG
1 ATAAGATTTATCTACCTAA
24859434 ATAA-ATTTA
1 ATAAGATTTA
24859443 AAATATATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (19 bp):
ATAAGATTTATCTACCTAA
Found at i:24863092 original size:21 final size:21
Alignment explanation
Indices: 24863055--24863094 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24863045 AATCATTAAA
*
24863055 TTGATGTTATGATATGTGTCT
1 TTGATGTTATGAAATGTGTCT
24863076 TTGATGTGTAT-AAATGTGT
1 TTGATGT-TATGAAATGTGT
24863095 AAGGGATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.50
Consensus pattern (21 bp):
TTGATGTTATGAAATGTGTCT
Found at i:24874658 original size:38 final size:38
Alignment explanation
Indices: 24874605--24874680 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
24874595 GCACGATGAG
*
24874605 AATGTGTATCGATTATTGACAGCTCGATAAAATGACCA
1 AATGTGTATCGATTATCGACAGCTCGATAAAATGACCA
*
24874643 AATGTGTATCTATTATCGACAGCTCGATAAAATGACCA
1 AATGTGTATCGATTATCGACAGCTCGATAAAATGACCA
24874681 TCAAGAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (38 bp):
AATGTGTATCGATTATCGACAGCTCGATAAAATGACCA
Found at i:24885185 original size:29 final size:29
Alignment explanation
Indices: 24885151--24885210 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
24885141 TAGCCATTTT
24885151 TATTTTCTTTCAGAGACTAAAATGTGACA
1 TATTTTCTTTCAGAGACTAAAATGTGACA
24885180 TATTTTCTTTCAGAGACTAAAATGTGACA
1 TATTTTCTTTCAGAGACTAAAATGTGACA
24885209 TA
1 TA
24885211 CTGTTGGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (29 bp):
TATTTTCTTTCAGAGACTAAAATGTGACA
Found at i:24886307 original size:41 final size:41
Alignment explanation
Indices: 24886245--24886328 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
24886235 GGTACCAGAT
*
24886245 CACTAGTTCAGTTTCCGATGTTTGAGTCATCTATCAGACAA
1 CACTAGTTCAGTTTCCAATGTTTGAGTCATCTATCAGACAA
24886286 CACTAGTTCAGTTTCCAATGTTTGAGTCATCTATCAGACAA
1 CACTAGTTCAGTTTCCAATGTTTGAGTCATCTATCAGACAA
24886327 CA
1 CA
24886329 GAGAATAAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (41 bp):
CACTAGTTCAGTTTCCAATGTTTGAGTCATCTATCAGACAA
Found at i:24886587 original size:27 final size:27
Alignment explanation
Indices: 24886552--24886606 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
24886542 TATTTTAGCC
24886552 AAAAGAGACGAAAATAAAAAGGATCAA
1 AAAAGAGACGAAAATAAAAAGGATCAA
24886579 AAAAGAGACGAAAATAAAAAGGATCAA
1 AAAAGAGACGAAAATAAAAAGGATCAA
24886606 A
1 A
24886607 CTTTTGGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.67, C:0.07, G:0.18, T:0.07
Consensus pattern (27 bp):
AAAAGAGACGAAAATAAAAAGGATCAA
Found at i:24890605 original size:18 final size:20
Alignment explanation
Indices: 24890577--24890618 Score: 70
Period size: 18 Copynumber: 2.2 Consensus size: 20
24890567 AATATTTAAA
24890577 TTAGTTAATATTATTAT-TT
1 TTAGTTAATATTATTATATT
24890596 TTAG-TAATATTATTATATT
1 TTAGTTAATATTATTATATT
24890615 TTAG
1 TTAG
24890619 AAAAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TTAGTTAATATTATTATATT
Found at i:24891679 original size:11 final size:12
Alignment explanation
Indices: 24891649--24891682 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
24891639 CGGCCTGCCC
24891649 ATATTAATTTTT
1 ATATTAATTTTT
24891661 ATATTAATTTTT
1 ATATTAATTTTT
24891673 ATA-TAATTTT
1 ATATTAATTTT
24891683 AAAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:24891936 original size:11 final size:11
Alignment explanation
Indices: 24891905--24891944 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
24891895 ACAATAACAA
*
24891905 CAAAATAGTAG
1 CAAAATAATAG
*
24891916 CAACATAATAG
1 CAAAATAATAG
*
24891927 TAAAATAATAG
1 CAAAATAATAG
24891938 CAAAATA
1 CAAAATA
24891945 GGGATAAAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:24892385 original size:31 final size:29
Alignment explanation
Indices: 24892341--24892453 Score: 95
Period size: 29 Copynumber: 3.8 Consensus size: 29
24892331 ATAAGTATTA
* *
24892341 AATTTATCCATAAATTTTGATTTAATATAC
1 AATTTATACATAAACTTTGATTT-ATATAC
24892371 AATTTAATACATAAACTTTGATTTGATATA-
1 AATTT-ATACATAAACTTTGATTT-ATATAC
* * * *
24892401 ACTATACACATAAACTTTGATTT-TGTAC
1 AATTTATACATAAACTTTGATTTATATAC
* *
24892429 AATTTTATATATGAAATTTTGATTT
1 AA-TTTATACAT-AAACTTTGATTT
24892454 GACCGGATTC
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
27 3 0.04
28 1 0.01
29 23 0.34
30 19 0.28
31 21 0.31
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (29 bp):
AATTTATACATAAACTTTGATTTATATAC
Found at i:24896815 original size:19 final size:18
Alignment explanation
Indices: 24896764--24896817 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
24896754 TAGAAATATA
*
24896764 TTAAAAAACTTATAATATT
1 TTAAAAAA-TTATAAAATT
* *
24896783 TTGAAATATATATAAAATTT
1 TTAAAAAAT-TATAAAA-TT
24896803 TTAAAAAATTATAAA
1 TTAAAAAATTATAAA
24896818 TATATATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 1 0.04
19 18 0.64
20 9 0.32
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
TTAAAAAATTATAAAATT
Found at i:24896845 original size:37 final size:36
Alignment explanation
Indices: 24896804--24896884 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 36
24896794 ATAAAATTTT
* *
24896804 TAAAAAATTATAAATATATATAAATGTATAAAACAAC
1 TAAAAAATTATAAATATATAAAAATATATAAAA-AAC
** *
24896841 TAAAATTTTATAAATTTATAAAAATATATAAAAAAC
1 TAAAAAATTATAAATATATAAAAATATATAAAAAAC
24896877 TAAAAAAT
1 TAAAAAAT
24896885 CCCATGAATC
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 9 0.24
37 28 0.76
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (36 bp):
TAAAAAATTATAAATATATAAAAATATATAAAAAAC
Found at i:24904503 original size:8 final size:8
Alignment explanation
Indices: 24904490--24904538 Score: 68
Period size: 8 Copynumber: 6.4 Consensus size: 8
24904480 TTCTTTATTT
24904490 TTATTTTA
1 TTATTTTA
24904498 TTA-TTTA
1 TTATTTTA
24904505 TTA-TTTA
1 TTATTTTA
24904512 TTATTTTA
1 TTATTTTA
24904520 TTATTTTA
1 TTATTTTA
24904528 TT-TTATTA
1 TTATT-TTA
24904536 TTA
1 TTA
24904539 ATCACTTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
7 16 0.42
8 22 0.58
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TTATTTTA
Found at i:24904508 original size:3 final size:3
Alignment explanation
Indices: 24904484--24904538 Score: 55
Period size: 3 Copynumber: 19.0 Consensus size: 3
24904474 TTATTTTTCT
*
24904484 TTA TTT TTA TT- TTA TTA TTTA TTA TTTA TTA TT- TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA TTA
24904528 TT- TTA TTA TTA
1 TTA TTA TTA TTA
24904539 ATCACTTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
2 8 0.18
3 30 0.68
4 6 0.14
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (3 bp):
TTA
Found at i:24907140 original size:120 final size:120
Alignment explanation
Indices: 24906924--24907186 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
24906914 TTGAATGCTG
* *
24906924 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* * **
24906988 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGAAAGGTACTAAA
* * * * **
24907044 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
24907107 TCGTGCGAGTTATTAAA-TCCGGGTTAAGTCCCGAAGGCATTGTGAAAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGAAAGGTACTAAA
* *
24907163 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
24907187 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGAAAGGTACTAAA
Found at i:24907168 original size:39 final size:39
Alignment explanation
Indices: 24906924--24907186 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
24906914 TTGAATGCTG
* * * * * *
24906924 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** *
24906964 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * *
24907003 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
24907044 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
24907084 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
**
24907124 TCCGGGTTAAGTCCCGAAGGCATTGTGAAAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
24907163 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
24907187 TGAACGAGGA
Statistics
Matches: 194, Mismatches: 22, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
39 38 0.20
40 145 0.75
41 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:24907206 original size:79 final size:79
Alignment explanation
Indices: 24906925--24907221 Score: 262
Period size: 80 Copynumber: 3.7 Consensus size: 79
24906915 TGAATGCTGT
* * * **
24906925 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAG-GACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* ** * *
24906988 TGTGCGAGATAC-AAATT
63 CGTGAAAGTTACTAAA-A
* * *
24907005 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGG-ACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
** * *
24907070 TGCGAGTTATTAAAT
65 TGAAAGTTACTAAAA
* * * *
24907085 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-GACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
24907149 TGAAAGTTACTAAAA
65 TGAAAGTTACTAAAA
* ** * *
24907164 CCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGA-CTAAATCCGGGTTAAGTCCCGAAGG
24907222 TATGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 16 0.09
79 46 0.25
80 111 0.61
81 10 0.05
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGACTAAATCCGGGTTAAGTCCCGAAGGCATTCGT
GAAAGTTACTAAAA
Found at i:24911525 original size:40 final size:40
Alignment explanation
Indices: 24911481--24911704 Score: 237
Period size: 40 Copynumber: 5.6 Consensus size: 40
24911471 GCTCCTCGTT
*
24911481 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
24911521 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
24911561 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * *
24911600 CAAATGCGTTC-GGATCTTAGTCCGGATT-TAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTATAGTAACTCGCA
* * * * *
24911640 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
24911681 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
24911705 ACATTATTCA
Statistics
Matches: 159, Mismatches: 15, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 113 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:24911583 original size:79 final size:78
Alignment explanation
Indices: 24911481--24911705 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
24911471 GCTCCTCGTT
* *
24911481 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
24911546 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* * * *
24911561 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCGTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
*
24911625 ATTTAGTATCTCGCA
64 ATTTAGTAACTCGCA
* * * * *
24911640 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
24911704 GA
63 GA
24911706 CATTATTCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 4 0.03
79 65 0.53
80 42 0.34
81 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
TTAGTAACTCGCA
Found at i:24926196 original size:20 final size:22
Alignment explanation
Indices: 24926173--24926218 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 22
24926163 AATAGTGGAT
24926173 TATTTTTAA-AATA-TTAAAAA
1 TATTTTTAACAATATTTAAAAA
*
24926193 TA--TTTAACTATATTTAAAAA
1 TATTTTTAACAATATTTAAAAA
24926213 TATTTT
1 TATTTT
24926219 ATTTTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
18 5 0.24
19 3 0.14
20 11 0.52
22 2 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTTTTAACAATATTTAAAAA
Found at i:24926215 original size:10 final size:10
Alignment explanation
Indices: 24926180--24926217 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
24926170 GATTATTTTT
24926180 AAAATA-TTA
1 AAAATATTTA
24926189 AAAATATTTA
1 AAAATATTTA
**
24926199 ACTATATTTA
1 AAAATATTTA
24926209 AAAATATTT
1 AAAATATTT
24926218 TATTTTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
9 6 0.25
10 18 0.75
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (10 bp):
AAAATATTTA
Found at i:24933754 original size:46 final size:46
Alignment explanation
Indices: 24933702--24934024 Score: 400
Period size: 46 Copynumber: 7.0 Consensus size: 46
24933692 GTGTGCTCTC
*
24933702 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACT
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
24933748 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGG-AAGCC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA-CA
* *
24933794 TGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGC-ACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
24933839 TGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** *** ***
24933885 TGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGTG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* **
24933931 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
24933977 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
24934023 TG
1 TG
24934025 TCAAAGATAA
Statistics
Matches: 249, Mismatches: 24, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
45 47 0.19
46 202 0.81
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:24933949 original size:137 final size:138
Alignment explanation
Indices: 24933701--24934042 Score: 431
Period size: 137 Copynumber: 2.5 Consensus size: 138
24933691 AGTGTGCTCT
* * * ***
24933701 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
* **
24933766 ACCATGGTTGAAAGATACCATGGAAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGAAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGATACC
24933831 ATGGC-AC
131 ATGGCAAC
* *
24933838 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
* ** *
24933903 ACCATGGTTGAAAGATACCATGGCAGTGTGACATGAAATGAATAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGAAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGATACC
24933968 ATGGCAAC
131 ATGGCAAC
* * * * * * * *
24933976 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCA--AAGATAAATA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAA-ATAAATA
24934038 AGACC
64 AGACC
24934043 GTGGATGGGA
Statistics
Matches: 177, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
136 2 0.01
137 133 0.75
138 42 0.24
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (138 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
ACCATGGTTGAAAGATACCATGGAAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGATACC
ATGGCAAC
Found at i:24938355 original size:25 final size:26
Alignment explanation
Indices: 24938303--24938426 Score: 80
Period size: 25 Copynumber: 4.9 Consensus size: 26
24938293 AACCATATTG
*
24938303 GGAAGCTCACAAAGAGCCATGTAACA
1 GGAAGCTCACAAAGAGCCATATAACA
* * *
24938329 GGAAGCTC-CAGATAGCCATATATCA
1 GGAAGCTCACAAAGAGCCATATAACA
* ** *
24938354 GGAAGTTCA-AGCGAG-CACTAT--CG
1 GGAAGCTCACAAAGAGCCA-TATAACA
* *
24938377 GGAAGCTCACGAAGAGCCAATTTAACA
1 GGAAGCTCACAAAGAGCC-ATATAACA
**
24938404 GGAAGCTCATGAAGAGCC-TATAA
1 GGAAGCTCACAAAGAGCCATATAA
24938427 TTGGGATGCT
Statistics
Matches: 75, Mismatches: 16, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
23 9 0.12
24 5 0.07
25 34 0.45
26 9 0.12
27 18 0.24
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCATATAACA
Found at i:24939461 original size:20 final size:19
Alignment explanation
Indices: 24939433--24939499 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
24939423 CGGGTGCCTT
*
24939433 TGATAGCATATTTGTGTCCC
1 TGATTGCATATTTGTG-CCC
*
24939453 TGATTGCAT-TTTAGTGCCT
1 TGATTGCATATTT-GTGCCC
* * *
24939472 TGATTACACACTTGTGCTCC
1 TGATTGCATATTTGTGC-CC
24939492 TGATTGCA
1 TGATTGCA
24939500 CTTTGGTACC
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (19 bp):
TGATTGCATATTTGTGCCC
Found at i:24944385 original size:93 final size:93
Alignment explanation
Indices: 24944226--24944411 Score: 363
Period size: 93 Copynumber: 2.0 Consensus size: 93
24944216 TATGTGAAGT
24944226 GTTTTATTATTTAATTAATGCTTATAGAGTTATATGAGGGTCATATTAAAATATGGTTAAGAAAT
1 GTTTTATTATTTAATTAATGCTTATAGAGTTATATGAGGGTCATATTAAAATATGGTTAAGAAAT
24944291 TATAATGTTTAGATAGTTAATTAAGTAA
66 TATAATGTTTAGATAGTTAATTAAGTAA
*
24944319 GTTTTTTTATTTAATTAATGCTTATAGAGTTATATGAGGGTCATATTAAAATATGGTTAAGAAAT
1 GTTTTATTATTTAATTAATGCTTATAGAGTTATATGAGGGTCATATTAAAATATGGTTAAGAAAT
24944384 TATAATGTTTAGATAGTTAATTAAGTAA
66 TATAATGTTTAGATAGTTAATTAAGTAA
24944412 AAAAAGATTA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (93 bp):
GTTTTATTATTTAATTAATGCTTATAGAGTTATATGAGGGTCATATTAAAATATGGTTAAGAAAT
TATAATGTTTAGATAGTTAATTAAGTAA
Found at i:24945601 original size:20 final size:21
Alignment explanation
Indices: 24945548--24945608 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
24945538 TGTCCCTATT
*
24945548 TGCACATTCGTGCCCTTTGA-A
1 TGCACATTCGTGCCC-CTGATA
* *
24945569 TGCACTTTGGTGCCCCTGATA
1 TGCACATTCGTGCCCCTGATA
24945590 -GCACATTCGTGCCCCTGAT
1 TGCACATTCGTGCCCCTGAT
24945609 TTCGGTGCCC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 20 0.59
21 14 0.41
ACGTcount: A:0.16, C:0.31, G:0.21, T:0.31
Consensus pattern (21 bp):
TGCACATTCGTGCCCCTGATA
Found at i:24945622 original size:34 final size:35
Alignment explanation
Indices: 24945577--24945643 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
24945567 AATGCACTTT
*
24945577 GGTGCCCCTGATAGCACATTCGTGCCCCTGATTTC
1 GGTGCCCCTGATAGCACACTCGTGCCCCTGATTTC
* *
24945612 GGTG-CCCTGATTGCACACTCGTGCTCCTGATT
1 GGTGCCCCTGATAGCACACTCGTGCCCCTGATT
24945644 GCACTTTGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 25 0.86
35 4 0.14
ACGTcount: A:0.13, C:0.33, G:0.24, T:0.30
Consensus pattern (35 bp):
GGTGCCCCTGATAGCACACTCGTGCCCCTGATTTC
Found at i:24952546 original size:44 final size:44
Alignment explanation
Indices: 24952435--24952605 Score: 152
Period size: 44 Copynumber: 3.9 Consensus size: 44
24952425 AGCTCGTACA
* * * *
24952435 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCA-AATATCG
1 ATGCCAACGTCCCACACGTAGTCTTACACGTAAATCATAA-GTCG
* * * *
24952478 ATGCC-ACTATCCTAGACAG-AGTCTTACATGTAAATCATAAGTCG
1 ATGCCAAC-GTCCCACAC-GTAGTCTTACACGTAAATCATAAGTCG
* * * * *
24952522 ATGTCAATGTCCCAGATGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCACACGTAGTCTTACACGTAAATCATAAGTCG
*
24952566 ATGCCAACGTCCCACACGTAGTCTTACACGAAATATCATA
1 ATGCCAACGTCCCACACGTAGTCTTACACGTAA-ATCATA
24952606 TTGGATCCTA
Statistics
Matches: 104, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
42 2 0.02
43 24 0.23
44 69 0.66
45 9 0.09
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCCACACGTAGTCTTACACGTAAATCATAAGTCG
Found at i:24958732 original size:51 final size:51
Alignment explanation
Indices: 24958637--24958768 Score: 129
Period size: 51 Copynumber: 2.6 Consensus size: 51
24958627 TGGTTTTAGG
* * * * *** *
24958637 TCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTACCTGATAGCTTCGA
1 TCACATGTGTGGTACTAAGTGCAAGCCACTATGTATAAAAGATAGATTCGA
* * *
24958688 TCACATGTGTGGTACTAAGTGCAGGCCACTATGTATAAAAGATAGATTTGG
1 TCACATGTGTGGTACTAAGTGCAAGCCACTATGTATAAAAGATAGATTCGA
* * * *
24958739 TCACAAGTATGGTACTATGTGAAAGCCACT
1 TCACATGTGTGGTACTAAGTGCAAGCCACT
24958769 TTGTGAATAA
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (51 bp):
TCACATGTGTGGTACTAAGTGCAAGCCACTATGTATAAAAGATAGATTCGA
Done.